Regulated rna decay rna stability. Medical search. Frequent questions

Nuclear mRNA transcripts acquire a protein coat composed of cap- and RNA-binding proteins that allow nuclear export and dictate the functional program of cytoplasmic mRNAs ( Moore, 2005 ). (rupress.org)
The findings pertain to mRNAs that help regulate cell division and could therefore have implications for reversing cancer's out-of-control cell division. (einsteinmed.edu)
These epitranscriptomic enzymes mark all kinds of RNA species, including mRNAs and ncRNAs, such as ribosomal RNAs (rRNAs), transfer RNAs (tRNAs), miRNAs, and lncRNAs ( 11 ). (amegroups.org)
This massive degradation of maternal mRNAs is a key regulatory event in early embryos, but it is poorly understood how this process is regulated. (harvard.edu)
Their application led to the successful design of artificial mRNAs with predetermined decay dynamics in early embryos: mutating or introducing specific sequences generated mRNAs with pre-determined decay profiles. (harvard.edu)
mRNAs that are predicted to be translated within axon growth cones or dendrites have long half-lives while mRNAs encoding transcription factors that regulate neurogenesis have short half-lives. (escholarship.org)
Nonsense-mediated mRNA decay (NMD) is a surveillance pathway that degrades mRNAs containing nonsense codons, and regulates the expression of naturally occurring transcripts. (ox.ac.uk)
Chemical modifications to protein encoding messenger RNAs (mRNAs) influence their localization, translation, and stability within cells. (nsf.gov)
RNA-binding proteins contribute to specificity by interacting with both Ccr4-Not and target mRNAs, but this is not fully understood. (elifesciences.org)
Heterogeneous population of RNA granules serve as motile units to translocate, store, translate, and degrade mRNAs in the dendrites contain cis -elements and trans -acting factors such as RNA-binding proteins and microRNAs to convey stimulus-, transcript-specific local translation. (frontiersin.org)
The mature miRNA is incorporated into a RNA-induced silencing complex (RISC), which recognizes target mRNAs through imperfect base pairing with the miRNA. (hindawi.com)
N 6 -methyladenosine (m 6 A) modification in mRNAs was recently shown to be dynamically regulated, indicating a pivotal role in multiple developmental processes. (biomedcentral.com)

Some miRNAs are hosted in pri-miRNAs annotated as long non-coding RNAs (lncRNAs) and defined as MIRHGs (for miRNA Host Genes). (mdpi.com)
In their search for such a mechanism, Dr. Singer and his colleagues focused on two genes, SWI5 and CLB2 , which code for proteins that regulate the cell cycle-the complex series of steps during which a cell divides, first duplicating its genetic material and then distributing it evenly to two daughter cells. (einsteinmed.edu)
We show that UPF1, UPF2, UPF3, SMG1, SMG5, and SMG6 regulate in concert the expression of a cohort of genes with functions in a wide range of cellular activities, including cell cycle progression. (ox.ac.uk)
Thus phenotypic differences observed across species following inhibition of NMD can be largely attributed to changes in the repertoire of regulated genes. (ox.ac.uk)
While over half the genes are estimated to be regulated at the transcriptional level, few regulatory motifs and transcription regulators have been found. (biomedcentral.com)
similarly, it is thought to be likely that genes with similar functions are regulated by the same mechanism. (biomedcentral.com)
Overexpression of the RNA-binding protein HuR (ELAVL1) occurs during colon tumorigenesis and is abnormally present within the cytoplasm, where it post-transcriptionally regulates genes through its interaction with 3'UTR AU-rich elements (AREs). (oncotarget.com)
To identify YpdB-regulated genes, we compared the transcriptomes of E. coli cells overproducing either YpdB or a control protein. (cipsm.de)
Recently, we have shown that, besides their effect on genome structure and stability, ISs can affect expression profiles of neighboring genes by IS element-specific promoters ( 21 ). (cdc.gov)

If smORFs present within lncRNAs can encode functional small peptides, they can also constitute cis -regulatory elements involved in lncRNA decay. (mdpi.com)
Emerging evidence suggests that N6-methyladenosine (m6A)-modified transcripts of long noncoding RNAs (lncRNAs) are important regulators that participate in many diseases. (biomedcentral.com)
However, whether m6A modified transcripts of lncRNAs can regulate pyroptosis in HPH progression remains unexplored. (biomedcentral.com)
Long noncoding RNAs (lncRNAs) are a large class of RNA molecules ranging in length from 200 to 100,000 nt and located in the nucleus or cytoplasm (Ponting et al. (biomedcentral.com)
These regions are usually transcribed into long non-coding RNAs (lncRNAs). (biomedcentral.com)
Notably, many lncRNAs dysregulation are associated with Oral squamous cell carcinoma (OSCC) and affect various aspects of cellular homeostasis, including proliferation, survival, migration or genomic stability. (biomedcentral.com)
The emergence of non-protein-coding RNAs (ncRNAs), especially microRNAs (miRNAs) and more recent long non-coding RNAs (lncRNAs), has shed a light on further dissecting the gene regulatory networks of the heart ( 3 , 4 ). (amegroups.org)

DHX9 is a DExH-box RNA helicase with versatile functions in transcription, translation, RNA processing and regulation of DNA replication. (bvsalud.org)
The combined effects of the structural changes considerably alter the RNA-binding channel, providing an opportunity to compare active and inactive states of the helicase. (bvsalud.org)
The mechanism of mRNA decay has largely been worked out in animals and revolves around the phosphorylation of an RNA helicase called UPF1 by a kinase SMG1. (garnetcommunity.org.uk)
Activities of the DEAD box (Asp-Glu-Ala-Asp) family of proteins- including RNA-dependent ATPase and RNA helicase- function in all organisms to sculpt RNA-RNA duplex and RNA-protein complexes, ensuring that necessary rearrangements are rapidly and properly resolved during genetic information processing. (gsu.edu)
Identified as a prototypic member of the DEAD box family and documented as an ATPase and RNA helicase, p68 plays essential and diverse functions in the control of gene expression ranging from pre-mRNA/rRNA processing and mRNA decay/stability to transcriptional activation and initiation. (gsu.edu)
The dissertation thus demonstrates a tight coordination between DEAD box RNA helicase and cancer development. (gsu.edu)

MicroRNAs (miRNAs) are small regulatory non-coding RNAs, resulting from the cleavage of long primary transcripts (pri-miRNAs) in the nucleus by the Microprocessor complex generating precursors (pre-miRNAs) that are then exported to the cytoplasm and processed into mature miRNAs. (mdpi.com)
Other researchers, Perera notes, have attempted to profile genomewide transcript stability by using chemicals that block all transcription, and then observing the stability of the transcripts that existed before blocking. (news-medical.net)
To address this, Perera and colleagues used BRIC-seq, a method that tags transcripts with 5-Bromouridine, which is incorporated into newly synthesized RNAs and then can be immunocytochemically analyzed over time without disturbing the rest of the cellular environment. (news-medical.net)
Using this approach neural-specific decay kinetics were observed, including stabilization of transcripts encoding regulators of axonogenesis and destabilization of transcripts encoding ribosomal proteins and histones. (escholarship.org)
Only a few transcripts were regulated exclusively by individual factors, suggesting that these proteins act mainly in the NMD pathway and their role in mRNA decay has not diverged substantially. (ox.ac.uk)
Translation of small open reading frames within unannotated RNA transcripts in Saccharomyces cerevisiae. (case.edu)
During the Maternal-to-Zygotic Transition (MZT), thousands of maternal transcripts are regulated, however, how different cis-elements and trans-factors are integrated to determine mRNA stability is still poorly understood. (refine.bio)
Here, we show that most transcripts are under combinatorial regulation by multiple decay pathways during zebrafish MZT. (refine.bio)

YTHDF2 has been extensively studied and typified as an RNA-binding protein that specifically recognizes and destabilizes RNAs harboring N6-methyladenosine (m6A), the most prevalent internal modification found in eukaryotic RNAs. (bvsalud.org)
The Ccr4-Not complex removes mRNA poly(A) tails to regulate eukaryotic mRNA stability and translation. (elifesciences.org)
EIF5B (Eukaryotic Translation Initiation Factor 5B) is a conserved eukaryotic translation factor that mediates association of the 40S and 60S ribosomal subunits during eukaryotic translation initiation, and modulates the cell cycle progression by regulating the translation of upstream open reading frames (uORF)-containing mRNAs such as p27 and p21 [ 3 ]. (techscience.com)
ISWI slides nucleosomes along DNA, enabling the structural changes of chromatin required for the regulated use of eukaryotic genomes. (cipsm.de)
More than 60% of all RNA modifications are methylated modifications, and m6A is the most abundant chemical modification in eukaryotic messenger RNA (mRNA). (biomedcentral.com)

Additionally, DRP1 is a downstream target gene of FENDRR, and FENDRR formed an RNA-DNA triplex with the promoter of DRP1, which led to an increase in DRP1 promoter methylation that decreased the transcriptional level of DRP1. (biomedcentral.com)
The first of these responds to acute and global changes in transcription and thus counteracts potentially harmful gene mis-expression by shifting the RNA stability in the direction opposite to the transcriptional change. (scilifelab.se)
The second response enhances inter-individual differential gene expression by adjusting the RNA stability in the same direction as a transcriptional change. (scilifelab.se)
Although candidate studies have revealed important mechanisms of post-transcriptional regulation of gene expression via mRNA decay, there is a lack of global information on mRNA decay during development. (escholarship.org)
This work demonstrates a dynamic post-transcriptional program including mRNA decay allows fine-tuning of gene expression during neural development. (escholarship.org)
The basal transcriptional apparatus (RNA Polymerase II, TATA-box binding protein and other components) in Pf is similar to that in free-living eukaryotes. (biomedcentral.com)
TDP-43 protein plays an important role in regulating transcriptional repression, RNA metabolism and splicing. (nature.com)
Co-transcriptional pre-mRNA processing relies on reversible phosphorylation of the carboxyl-terminal domain (CTD) of Rpb1, the largest subunit of RNA polymerase II (RNAP II). (cipsm.de)
Recent studies have found that non-coding RNAs and post transcriptional modification of RNAs have become the active fields of cancer research. (biomedcentral.com)
These findings define a potential mechanism whereby phosphor-p68 recruits â-catenin into cell nucleus in ATP hydrolysis driven fashion and cooperatively regulates transcriptional programs that control an EMT. (gsu.edu)

Nonsense-mediated mRNA decay factors act in concert to regulate common mRNA targets. (ox.ac.uk)
Meaux, S., van Hoof, A. and Baker , K.E. (2008) Nonsense-mediated mRNA decay in yeast does not require PAB1 or a poly(A) tail. (case.edu)
In "Nonsense-mediated mRNA decay", ed. (case.edu)
Baker, K.E. and Parker, R. (2004) Nonsense-mediated mRNA decay: terminating erroneous gene expression. (case.edu)
Nonsense-mediated mRNA decay (NMD) is a little heard of pathway to regulate transcript stability and it has recently been shown to be involved in pathogen response in A. thaliana (Rayson et al. (garnetcommunity.org.uk)
Lloyd JPB and Davies B (2013) SMG1 is an ancient nonsense-mediated mRNA decay effector. (garnetcommunity.org.uk)
2012) A Role for Nonsense-Mediated mRNA Decay in Plants: Pathogen Responses Are Induced in Arabidopsis thaliana NMD Mutants. (garnetcommunity.org.uk)

One gene, dual specificity phosphatase 3 (DUSP3), regulates important melanoma signaling pathways. (news-medical.net)
Previous studies in flies, frogs and fish found pathways that act through specific mRNA sequences to recruit the cellular machinery and promote or inhibit mRNA decay. (harvard.edu)

We propose that ribosome specificity may exist in mammals, providing evidence that one ribosomal protein can influence composition of the ribosome by regulating its own paralog. (prolekarniky.cz)
Ribosome synthesis is a highly controlled process, whereby three distinct RNA polymerases are synchronously coordinated to produce equimolar amounts of four rRNAs and 79 mammalian ribosomal proteins (RPs) [1] - [4] . (prolekarniky.cz)

Furthermore, we find that dynamic 3'-UTR structures are enriched in RNA decay elements, including regulatory elements in nanog, and cyclin A1, key maternal factors orchestrating the maternal-to-zygotic transition. (refine.bio)

The C-terminal domain of YTHDF2 selectively binds to m6A-containing mRNA whereas the N-terminal domain is responsible for the localization of the YTHDF2-mRNA complex to cellular RNA decay sites. (scienceopen.com)
Gene expression is regulated extensively at the level of mRNA stability, localization, and translation. (refine.bio)

The intracellular distribution pattern suggests that RNase T2 may be involved in degrading exogenous or endogenous RNAs in lysosome and regulating mitochondrial RNA metabolism ( 6 - 8 ). (frontiersin.org)
It has been found that the effect of m6A modification on RNA metabolism involves processing, nuclear export, translation and even decay. (biomedcentral.com)

Cytoplasmic RNA granules in germ cells (polar and germinal granules), somatic cells (stress granules and processing bodies), and neurons (neuronal granules) have emerged as important players in the posttranscriptional regulation of gene expression. (rupress.org)
Modulation of RNA stability regulates gene expression in two opposite ways: through buffering of RNA levels upon global perturbations and by supporting adapted differential expression. (scilifelab.se)
Here, we explore the role of RNA stability in achieving balanced gene expression and present genome-wide RNA stabilities in Drosophila melanogaster male and female cells as well as male cells depleted of proteins essential for dosage compensation. (scilifelab.se)
We identify two distinct RNA-stability mediated responses involved in regulation of gene expression. (scilifelab.se)
Mechanically, m6A can be recognized by "reader" proteins or can directly modify RNA conformation, and it widely affects gene expression by mediating RNA stability, translation, splicing and export. (scienceopen.com)
Our findings therefore suggest that RNA decoration by m(6)A has a fundamental role in regulation of gene expression. (scienceopen.com)
Yet traditional genome-wide approaches fail to address complex patterns of gene expression, which include both synthesis and decay. (escholarship.org)
RNA transport and regulated local translation play critically important roles in spatially restricting gene expression in neurons. (frontiersin.org)
MicroRNAs (miRNAs) is a large family of endogenous, small noncoding RNAs with 20-25 nucleotides that have emerged as key posttranscriptional regulators of gene expression in mammals, bacteria, and plants [ 1 - 4 ]. (hindawi.com)

Different classes of RNA granules share some protein components and may use similar mechanisms to regulate mRNA translation/decay. (rupress.org)
The relationship between FENDRR and dynamin-related protein 1 (DRP1) was explored using bioinformatics analysis, Chromatin Isolation by RNA Purification (CHIRP), Electrophoretic mobility shift assay (EMSA) and Methylation-Specific PCR (MSP) assays. (biomedcentral.com)
Here a protein called Dbf20p joins Dbf2p aboard the mRNA molecules-and the two proteins together call for the molecules' precipitous decay. (einsteinmed.edu)
The promoter regions do that by 'marking' the newly made mRNA with the protein Dbf2p-the common factor between mRNA synthesis and its ultimate decay. (einsteinmed.edu)
Using a small noncoding RNA, microRNA 211, and tools that track the stability and decay of the protein-coding and noncoding RNAs in lab-grown melanoma cells, a team led by a Johns Hopkins Kimmel Cancer Center researcher identified highly unstable RNA molecules in human melanomas , including a novel miR-211 target gene DUSP3. (news-medical.net)
Generally, Perera says, scientists approach their studies of the genetics of melanoma by looking to see which gene and protein products are up- or down-regulated in tumor cells compared with normal skin progenitors. (news-medical.net)
Here we show that m6A is selectively recognized by the human YTH domain family 2 (YTHDF2) protein to regulate mRNA degradation. (scienceopen.com)
Decreased expression of the RNA-binding protein, Pumilio, stabilizes predicted neural mRNA targets and presence of a 3'UTR PRE is sufficient to trigger mRNA decay in the nervous system. (escholarship.org)
When a cell needs to make a particular protein, it first copies the instructions from the matching gene into a molecule known as a messenger RNA (or an mRNA for short). (elifesciences.org)
Its major distinguishing features are the ability to bind RNA in a very specific manner through two RNA recognition motifs (RRM) and the C-terminal portion of the protein, which includes a glycine-rich domain that is involved in most of the protein interactions described 3 . (nature.com)
We identified trans-factors by profiling RNA-protein interactions and found that poly-U binding proteins are preferentially associated with 3'-UTR sequences and stabilizing motifs. (refine.bio)
The m 6 A reader protein Ythdf2 promotes mRNA degradation by recognizing m 6 A and recruiting the mRNA decay machinery. (biomedcentral.com)
KH-type splicing regulatory protein (KSRP) contains four K homology RNA-binding domains. (novusbio.com)

Additionally, the overall architecture and the individual domain structures of DHX9 are highly conserved with those of MLE, the Drosophila orthologue of DHX9 previously solved in complex with RNA and a transition-state analogue of ATP. (bvsalud.org)
TU-decay technology allows measurement of genome-wide mRNA decay in intact Drosophila embryos, across all tissues and specifically in the nervous system. (escholarship.org)
In Drosophila whole embryos, codon optimality is correlated with mRNA decay, while in the nervous system, codon-mediated effects on mRNA decay are attenuated. (escholarship.org)

RncO is a bacterial non-coding RNA regulatory element found in the rnc leader sequence. (wikipedia.org)
Finally, the UTR-Seq method is broadly applicable in many biological systems to discover sequence-to-activity RNA regulatory relationships. (harvard.edu)
Using a massively parallel reporter assay, we identified cis-regulatory sequences in the 3'-UTR, including poly-U motifs that are associated with mRNA stability. (refine.bio)
Finally, we integrated these regulatory motifs into a machine learning model that predicts reporter mRNA stability in vivo.This is the developmental mRNA-seq timecourse part of the study. (refine.bio)
These results reveal a central role of RNA structure dynamics in gene regulatory programs during embryogenesis.This is the developmental mRNA-seq timecourse part of the study. (refine.bio)

Messenger RNA molecules (in red) during cell division. (einsteinmed.edu)
They preferentially cleave single-stranded RNA molecules between purine and uridine residues to generate two nucleotide fragments with 2'3'-cyclic phosphate adenosine/guanosine terminus and uridine residue, respectively. (frontiersin.org)
Ribonucleases (RNases) are RNA-processing or -degrading enzymes that hydrolyze phosphodiester bonds within RNA molecules ( 1 ). (frontiersin.org)

N6-methyladenine (m6A) mRNA modification is the most abundant form of posttranscriptional RNA modification in eukaryotes. (biomedcentral.com)

Consequently, motif quality is a major determinant of mRNA stability for Puf3 targets in vivo and can be used for the prediction of mRNA targets. (elifesciences.org)
The m 6 A reader proteins Ythdf1-3 share a set of common mRNA targets and spatiotemporal interplay with each other cooperatively control translation and decay of these common targets in the cytosol [ 23 ]. (biomedcentral.com)

Although biochemical studies indicate that N(6)-methyladenosine (m(6)A) is the most prevalent internal modification in messenger RNA, an in-depth study of its distribution and functions has been impeded by a lack of robust analytical methods. (scienceopen.com)

The rnc operon is negatively auto-regulated by transcript stability. (wikipedia.org)
This sledgehammer method, however, is considered toxic, and can alter other aspects of a cell's biology in ways that may obscure transcript stability information. (news-medical.net)

2019) Transcriptome stability profiling using 5'-bromouridine IP chase (BRIC-seq) identifies novel and functional microRNA targets in human melanoma cells. (news-medical.net)
However, the targets of acupuncture-regulated miRNAs are not fully identified and validated and it is unknown whether this is involved in acupuncture's effects. (hindawi.com)

showed that RNase III cleavage can initiate rnc transcript decay independently of rnc gene translation. (wikipedia.org)
We review the relationship between different classes of these granules and discuss how spatial organization regulates messenger RNA translation/decay. (rupress.org)
Thus, GCGs contain proteins involved in translation initiation, translation control, and mRNA decay, which is consistent with their proposed role in the regulation ofs maternal mRNA expression. (rupress.org)
Baker, K.E. and Coller, J. (2006) The many routes to regulating mRNA translation. (case.edu)
The CSH Asia meeting on RNA Biology will feature cutting-edge advances in the field of RNA and will cover a broad range of topics, from RNA processing to translation, from non-coding RNA to RNA networks and therapeutics. (csh-asia.org)

The paper is titled "Single-molecule mRNA decay measurements reveal promoter-regulated mRNA stability in yeast. (einsteinmed.edu)

Once you gain insight into the mechanisms controlling the cell cycle and cell division," he noted, "you can propose targeted therapies for regulating the uncontrolled cell division that characterizes cancer. (einsteinmed.edu)
PubMed] [Google Scholar]Treisman R. the tetracycline-regulated (Tet-off) promoter systems to better explain mechanisms of mRNA turnover in mammalian cells. (iassist2012.org)
The disorders are characterized by a defect in DNA repair mechanisms or genomic stability, and patients with these disorders show increased predisposition to cancer. (medscape.com)

RNA cleavage is promoted by one to three histidine residues that are located in CAS I and II. (frontiersin.org)

N6-methyladenosine (m6A) is the most abundant inner RNA modification in eukaryotes. (scienceopen.com)

The resulting computational models established sequence-based rules that were able to predict the kinetics of mRNA decay during early zebrafish embryogenesis. (harvard.edu)

Morphological descriptions of RNA granules originated with Metschnikoff (1865) , who described dark staining granules at one pole within Miastor metraloas (fly) larvae. (rupress.org)

During her work, she developed a technique for RNA polymerase purification. (wepapers.com)
RNA polymerase is the enzyme that transcribes RNA from DNA and binds DNA at promoter regions. (wepapers.com)
She along with one another graduate student, Bertold Heyden, studied the promoter structure by identifying the RNA polymerase binding site from fd phage. (wepapers.com)

The reconstitution of a stable EJC core requires single-stranded RNA (ssRNA) and ATP (or its non-hydrolysable form, ADPNP), and in the absence of either, the complex is not formed 3 . (nature.com)

RNA immunoprecipitation (RIP) and m6A dot blot were used to detect the m6A modification levels of FENDRR. (biomedcentral.com)

The regulation of dual role of this hormone, activator and repressor some other defenses, indicates the existence of a post-regulating hormone synthesis. (upv.es)

Assuming an ideal situation, in which transcription of the mRNA of interest can be turned off completely (or at least to an undetectable level), mRNA decay follows first-order kinetics. (iassist2012.org)

In summary, our results demonstrated that m6A-induced decay of FENDRR promotes HPAEC pyroptosis by regulating DRP1 promoter methylation and thereby provides a novel potential target for HPH therapy. (biomedcentral.com)

They reported their findings June 16 in RNA Biology online. (news-medical.net)
We are pleased to announce the 2nd Cold Spring Harbor Asia conference on RNA Biology which will be held at the Suzhou Dushu Lake Conference Center in Suzhou, China, located approximately 60 miles west of Shanghai. (csh-asia.org)

The lifecycle of RNA is more dynamic, where they can be modified by a variety of enzymes. (amegroups.org)
This new field of study extends further understanding of epigenetics from the perspective of RNA, where the terminologies are adopted from epigenetics, including writers, readers, and erasers to categorize epitranscriptomic enzymes. (amegroups.org)

December 22, 2011 - (BRONX, NY) - Researchers at Albert Einstein College of Medicine of Yeshiva University have discovered the first known mechanism by which cells control the survival of messenger RNA ( mRNA ) - arguably biology's most important molecule. (einsteinmed.edu)
Following tissue damage, RNase T2 is secreted and participates in resistance against RNA viruses or functions as an alarm signaling molecule to regulate the host immune response and contributes to tissue remodeling and repair ( 12 , 13 ). (frontiersin.org)

The chemical modification of RNA is a newly discovered epigenetic regulation mechanism in cells and plays a crucial role in a variety of biological processes. (biomedcentral.com)
Through the development of m6A RNA sequencing, the relevant molecular mechanism of m6A modification has gradually been revealed. (biomedcentral.com)

The steady state levels of RNAs, often referred to as expression levels, result from a well-balanced combination of RNA transcription and decay. (scilifelab.se)
Alterations in RNA levels will therefore result from tight regulation of transcription rates, decay rates or both. (scilifelab.se)

In particular, as RNA binding proteins, RPs have been found to bind cellular and viral RNAs outside of the context of the ribosome. (prolekarniky.cz)

Its discovery revealed a class of amino/imino ribonucleoside artifacts that are generated during RNA hydrolysis under ammonium‐buffered mild basic conditions. (nsf.gov)

Specifically, OCP3 participates regulating ndhB transcript editing. (upv.es)

While these observations pertain to yeast cells, Dr. Singer said he is confident that the process governing mRNA decay in humans "will prove to be very similar" and could be relevant for combating cancer. (einsteinmed.edu)

Regardless of whether they are incorporated in a programmed manner or as the result of RNA damage, we reasoned that the ribosome will encounter the modifications that we detect in cells. (nsf.gov)
We detect a decrease in structure in translated regions, and identify the ribosome as a major remodeler of RNA structure in vivo. (refine.bio)

An extensive repertoire of modifications is known to underlie the versatile coding, structural and catalytic functions of RNA, but it remains largely uncharted territory. (scienceopen.com)

UTR-Seq tests thousands of sequences in parallel for their effect on mRNA stability and then builds computational models to decode the sequence-based rules of mRNA decay. (harvard.edu)
Using a two-color assay to simultaneously monitor poly(A) tail removal from different RNAs, we demonstrate that Puf3 can distinguish between RNAs of very similar sequence. (elifesciences.org)
Subsequent RNA sequence analysis and liquid chromatography with mass tandem spectrometry analyses showed that these variations translated into discretely separated transcriptomic and proteomic profiles. (cdc.gov)

The methodologies we developed result in no detectable non-coding RNA modifications signals in our purified mRNA samples, quantify 50 ribonucleosides in a single analysis, and provide the lowest limit of detection reported for ribonucleoside modification LC-MS/MS analyses. (nsf.gov)
It also opens a new way of thinking for biomedical scientists, whether RNA modification will be another important factor to regulate the biological development of neoplastic diseases. (biomedcentral.com)

Transcriptome-wide RNA-seq studies revealed that ASAP and PSAP complexes regulate distinct alternative splicing events both in EJC-independent and EJC-dependent manner. (nature.com)

IS element-mediated homologous recombination results in excision or insertion of flanking genome regions and leads to genome reduction and decay ( 14 - 16 ), as well as genome rearrangements ( 17 , 18 ) and large duplications ( 19 ). (cdc.gov)

Protocol.Regulation of lymphokine messenger RNA stability by a surface-mediated T cell activation pathway. (iassist2012.org)

The recent emergence of epitranscriptomics provides an avenue for identifying RNA modifications implicated in the pathophysiology of human disease. (amegroups.org)
Although RNA modifications have been reported in many tissues and disease contexts, detailed functional studies in the heart and cardiovascular disease are only beginning to be reported. (amegroups.org)
Indeed, more than 170 RNA modifications have been identified across species ( 6 ). (amegroups.org)
The recent discoveries of RNA modifications and their importance in normal and pathophysiological conditions have led to the emergence of new field of study called, epitranscriptomics ( 7 , 8 ). (amegroups.org)
Liquid chromatography‐tandem mass spectrometry (LC‐MS/MS) has become the gold‐standard technique to study RNA and its various modifications. (nsf.gov)
While most research on RNA nucleosides has been focused on their biological roles, discovery of new modifications remains of interest. (nsf.gov)
These finding and method enhancements will improve the accurate detection of new RNA modifications. (nsf.gov)

We summarize the recent findings of three epitranscriptomic marks-N6-methyladenosine (m 6 A), adenosine to inosine (A-to-I) RNA editing, and 5-methylcytosine (m 5 C) as other epitranscriptomic marks are not studied extensively in the cardiovascular system and disease. (amegroups.org)
Our findings demonstrate that miR-339 regulates Sirt2 in human and rat neurons. (hindawi.com)

RNA folding plays a crucial role in RNA function. (refine.bio)

Anatomy10

Organisms7

Diseases1

Chemicals and Drugs79

Analytical, Diagnostic and Therapeutic Techniques and Equipment19

Phenomena and Processes59

Information Science3

Health Care2

MRNAs12

Genes9

LncRNAs7

Helicase6

Transcripts8

Eukaryotic5

Transcriptional10

Nonsense-media7

Pathways2

Ribosomal2

Maternal-to-zygotic transition1

Localization2

Metabolism2

Gene expression9

Protein13

Drosophila3

Regulatory5

Molecules3

Posttranscriptional1

MRNA targets2

Prevalent internal modification1

Transcript stability2

Targets2

Translation5

Promoter-regulated1

Mechanisms3

Cleavage1

Eukaryotes1

Zebrafish1

Morphological1

Polymerase3

Single-stranded1

Immunoprecipitation1

Synthesis1

Kinetics1

Methylation1

Biology2

Enzymes2

Molecule2

Mechanism2

Transcription2

Cellular1

Hydrolysis1

Participates1

Yeast1

Ribosome2

Catalytic1

Sequence3

Modification2

Distinct1

Genome1

Messenger1

Modifications7

Findings2

Role1